Experiment: SMSA with Ralstonia_antibiotic_mix
Only strains with sufficient reads to estimate fitness are shown,
but the strain fitness values are still rather noisy and may be biased towards zero.
Strains near the edge of a gene are not shown as being associated with that
gene (they are in grey).
Strains in the central 10-90% of a gene are color coded by the insertion's strand.
Usually, "+" means that the selectable marker is encoded on the forward strand,
i.e., transcribed rightward.
500 nt RS_RS04215 and RS_RS04220 overlap by 41 nucleotides RS_RS04220 and RS_RS04225 are separated by 102 nucleotides RS_RS04225 and RS_RS04230 are separated by 224 nucleotides RS_RS04230 and RS_RS04235 are separated by 98 nucleotides RS_RS04235 and RS_RS04240 are separated by 127 nucleotides
RS_RS04215: RS_RS04215 - DNA methylase N-4, at 886,057 to 887,292
_RS04215
RS_RS04220: RS_RS04220 - hypothetical protein, at 887,252 to 887,497
_RS04220
RS_RS04225: RS_RS04225 - hypothetical protein, at 887,600 to 887,965
_RS04225
RS_RS04230: RS_RS04230 - hypothetical protein, at 888,190 to 888,378
_RS04230
RS_RS04235: RS_RS04235 - hypothetical protein, at 888,477 to 888,827
_RS04235
RS_RS04240: RS_RS04240 - DUF3489 domain-containing protein, at 888,955 to 889,449
_RS04240
Position (kb) 888
889 Strain fitness (log2 ratio) -1
0
1
2 at 887.204 kb on - strand at 887.236 kb on + strand at 887.236 kb on + strand at 887.236 kb on + strand at 887.473 kb on + strand at 887.474 kb on - strand at 887.537 kb on - strand at 887.913 kb on + strand, within RS_RS04225 at 887.913 kb on + strand, within RS_RS04225 at 887.913 kb on + strand, within RS_RS04225 at 887.946 kb on - strand at 888.111 kb on + strand at 888.112 kb on - strand at 888.115 kb on + strand at 888.212 kb on + strand, within RS_RS04230 at 888.357 kb on - strand, within RS_RS04230 at 888.414 kb on + strand at 888.434 kb on + strand at 888.695 kb on - strand, within RS_RS04235 at 888.695 kb on - strand, within RS_RS04235 at 888.753 kb on - strand, within RS_RS04235 at 888.753 kb on - strand, within RS_RS04235 at 888.753 kb on - strand, within RS_RS04235 at 888.948 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 887,204 - +0.2 887,236 + -1.6 887,236 + -0.4 887,236 + -0.1 887,473 + +2.0 887,474 - +1.0 887,537 - -0.5 887,913 + RS_RS04225 0.86 +1.0 887,913 + RS_RS04225 0.86 +0.2 887,913 + RS_RS04225 0.86 +0.1 887,946 - +0.5 888,111 + -0.0 888,112 - +0.3 888,115 + +0.0 888,212 + RS_RS04230 0.12 -0.8 888,357 - RS_RS04230 0.88 -0.0 888,414 + -0.0 888,434 + +0.6 888,695 - RS_RS04235 0.62 +0.5 888,695 - RS_RS04235 0.62 -0.0 888,753 - RS_RS04235 0.79 -0.0 888,753 - RS_RS04235 0.79 -0.3 888,753 - RS_RS04235 0.79 +0.3 888,948 + +0.8
Or see this region's nucleotide sequence